Sun Computational Biology SIG Newsletter - 12 October 2004
GDB Human Genome Database: Feedback Sought For over a decade the GDB Human Genome Database has been a peer-reviewed resource for human genetic mapping. In the spirit of GDB, we are beta-testing a new set of genomic resources. One project, APR, was created to promote the sharing of information focused on records stored in publicly accessible databases. The idea for this came from the longstanding discussion in the scientific community regarding inaccuracies or inconsistencies in public data. This component of our system allows researchers to connect additional information (including documents and citation links) to records in GenBank. These annotations are stored in a separate database and are linked to GenBank based on the accession number of the selected record. Through the APR, software users directly access GenBank and when records are retrieved, those records with annotations are indicated in the APR viewer. While this release focuses on GenBank as a proof-of-principal we envision extending its scope to allow for the sharing of community information related to records in other databases. This is a beta period is our first step toward our public release which we hope will continue to spur the creation of human annotated biological information. We are especially interested in reaching out to new investigators for feedback, and ask you to forward this message on to those whom you feel might be interested in this resource. In the same manner as GDB, access to APR is free and this research is currently being supported by the internal research and development funds of the not-for-profit RTI International (a trade name of the Research Triangle Institute). Requests for more information and requests for accounts can be addressed directly to Jamie@gdb.org. Cheers, A. Jamie Cuticchia, Ph.D. Sun Microsystems and The University of Texas Power Up One-of-a-Kind Remote Terascale Visualization Supercomputer
Texas Advanced Computing Center goes live with Maverick, a unique high performance grid-based computer to provide remote 3D graphics and data intense compute resources for global weather prediction and homeland security
UCSD/SDSC Researchers Model Relationship Between Mutations in Enzymes and Breast Cancer Risk
Research may lead to design of new drugs and individualized treatments
Agenda for CB-SIG Pittsburgh, 7 Nov 2004: Register Now!
Register at:
Feature: About the U. Calgary Sun COE in Visual Genomics The Sun Centre of Excellence for Visual Genomics at the University of Calgary is one of Canada's premier bioinformatics laboratories. It hosts the first Java 3D-enabled CAVE automated virtual reality environment in the world, allowing researchers to immerse themselves in computer models similar to the Holodeck on Star Trek. Canada's only Paracel GeneMatcher 2 plus 4 TimeLogic DeCypher boards in a Sun Enterprise V880 server are also the only ones of their kind on the Internet. In combination, they outperform computational resources at the National Centre for Biotechnology Information and The Institute for Genomic Research. The COE has had over 100,000 machines connect from almost 150 domains. Over 5,500 machines from Canada are connected to the COE and over 100 gigabytes of data have been transferred. A powerful network of dedicated hardware with 14 physical nodes addresses the need for access to a large-capacity bioinformatics computational infrastructure. There are 1,200+ users, most of whom would not have alternative access to bioinformatics-related hardware, software, and databases in Canada. Through Genome Canada funding and administered by Genome Prairie, the COE is also home to the Distributed and Integrated Genome Canada Bioinformatics Platform. Platform resources are devoted to service provision such as data analysis, training, help desk support and public outreach, custom programming, informatics support, and hardware access. Unparalleled software and hardware access and support, highly qualified experts on the team, focus on service provision, and cutting-edge methodology development work together within this Platform to make it internationally competitive. For further information, please see http://gcbioinformatics.ca. Launch of Community Forum on Integrating Knowledge in the Life Science Product Life Cycle: Get Involved! This launch event initiates a series of community-based virtual and face-to-face meetings and workshops devoted to best practice in this key industry subject running throughout 2005. The program covers the latest developments in life science product management, strategies and best knowledge management practices. We have arranged for you to get a 20% discount on the registration fee of $300, and even furthe discounts for academics. To take advantage of this, contact Nicki Douglas (kmls@douglasconnect.com) and mention the code "Sun_plc04". Dr JohnRobert Gardner of Sun will be speaking on knowledge-sharing tools in his talk, "Tracking what you know, Finding what you don't, Putting it all together" within the session, Supporting Innovation in Life Science Product Development at 12:00 noon EDT Oct 21. Please visit the conference site at http://km.colayer.net/, register and get involved!
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